New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	W3110S.gb	= 2173564	NA (NA)	17 (0.760)	12/100	NT	100%	pseudogene (307/2041 nt) pseudogene (307/339 nt)	gatR gatR	DNA‑binding transcriptional regulator; ECK2083:JW5340+JW2074:b4498 DNA‑binding transcriptional regulator, C‑ter fragment; ECK2083:JW2074:b2090
	?	W3110S.gb	3920278 =	0 (0.000)					coding (91/213 nt)	cspA	major cold shock protein

GCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCa‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  W3110S.gb/2173495‑2173564 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ACACATCTTTAGAGCCATCGTCAGGAGTGATGAAGCCGAAGCCTTTGTCAGCGTTGAACCATTTT  >  W3110S.gb/3920278‑3920342                                                                                                                                         GCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCA                                                                  >  1:697399/1‑71       GTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCA                                                                  <  1:747350/65‑1       GTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCA                                                                  <  1:1949488/65‑1                 ATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCACACATCTTTAGAGCCA                                                  >  1:256368/1‑71                                CCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCACACATCTTTAGAGCCATCGTCAGGAGTGATG                                   <  1:685906/71‑1                                CCTCGCGTAGGCCTGTGTCCATATTACGTGGGTAGGATCA                                                                  >  1:588544/1‑40                                    GCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCACACATCTTTAGAGCCATCGTCAGGAGTGATGAAGC                               >  1:1840862/1‑71                                    GCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCACACATCTTTAGAGCCATCGTCAGGAGTGATGAA                                 <  1:583686/69‑1                                    GCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCACACATCTTTAGAGCCATCGTCAGGAGTGATGAA                                 <  1:417877/69‑1                                    GCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCA                                                                  >  1:923031/1‑36                                    GCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCA                                                                  >  1:1736778/1‑36                                       TAGGCCTGTGTCCATATTACGTGGGTAGGATCACACATCTTTAGAGCCATCGTCAGGAGTGATGAAGCCG                             >  1:634751/1‑70                                        AGGCCTGTGTCCATATTACGTGGGTAGGATCACACATCTTTAGAGCCATCGTCAGGAGTGATGAAGCCG                             <  1:677191/69‑1                                            CTGTGTCCATATTACGTGGGTAGGATCACACATCTTTAGAGCCATCGTCAGGAGTGATGAAGCCGAAGCCT                       >  1:1717259/1‑71                                                   CATATTACGTGGGTAGGATCACACATCTTTAGAGCCATCGTCAGGAGTGATG                                   <  1:475769/52‑1                                                     TATTACGTGGGTAGGATCACACATCTTTAGAGCCATCGTCAGGAGTGATGAAGCCGAAGCCTTTGTCAGCG              <  1:875209/71‑1                                                      ATTACGTGGGTAGGATCACACATCTTTAGAGCCATCGTCAGGAGTGATG                                   <  1:688663/49‑1                                                       TTACGTGGGTAGGATCACACATCTTTAGAGCGATCGTCAGGAGTGATGAAGCCGAAGCCTTTGTCAGCGTT            >  1:167379/1‑71                                                       TTACGTGGGTAGGATCACACATCTTTAGAGCCATCGTCAGGAGTGATGAAGCCGAAGCCTTTGTCAGCGTT            >  1:2009892/1‑71                                                       TTACGTGGGTAGGATCACACATCTTTAGAGCCATCGTCAGGA                                         >  1:1567878/1‑42                                                         ACGTGGGTAGGATCACACATCTTTAGAGCCATCGTCAGGAGT                                       <  1:472476/42‑1                                                             GGGTAGGATCACACATCTTTAGAGCCATCGTCAGGAGTGATGAAGCCGAAGCCTTTG                    <  1:1381791/57‑1                                                               GTAGGATCACACATCTTTAGAGCCATCGTCAGGAGTGATGAAGCCGAAGCCTTTGTCAGC               <  1:1570755/60‑1                                                                  GGATCACACATCTTTAGAGCCATCGTCAGGAGTGATGAAGCCGAAGCCTTTGTCAGCGTTGAACCATTTT  <  1:608698/70‑1                                                                   GATCACACATCTTTAGAGCCATCGTCAGGAGTGATG                                   <  1:1424198/36‑1                                                                                                                                         GCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCa‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  W3110S.gb/2173495‑2173564 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ACACATCTTTAGAGCCATCGTCAGGAGTGATGAAGCCGAAGCCTTTGTCAGCGTTGAACCATTTT  >  W3110S.gb/3920278‑3920342

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.